38 citations · 54 across the 6 of their papers we have counts for
6 papers
GenPIP: In-Memory Acceleration of Genome Analysis via Tight Integration of Basecalling and Read Mapping
Haiyu Mao, Mohammed Alser, Mohammad Sadrosadati +6
Nanopore sequencing is a widely-used high-throughput genome sequencing technology that can sequence long fragments of a genome into raw electrical signals at low cost. Nanopore seq…
SeGraM: A Universal Hardware Accelerator for Genomic Sequence-to-Graph and Sequence-to-Sequence Mapping
Damla Senol Cali, Konstantinos Kanellopoulos, Joel Lindegger +15
A critical step of genome sequence analysis is the mapping of sequenced DNA fragments (i.e., reads) collected from an individual to a known linear reference genome sequence (i.e.,…
GenStore: A High-Performance and Energy-Efficient In-Storage Computing System for Genome Sequence Analysis
Nika Mansouri Ghiasi, Jisung Park, Harun Mustafa +11
Read mapping is a fundamental, yet computationally-expensive step in many genomics applications. It is used to identify potential matches and differences between fragments (called…
GenShare: Sharing Accurate Differentially-Private Statistics for Genomic Datasets with Dependent Tuples
Nour Almadhoun Alserr, Ozgur Ulusoy, Erman Ayday +1
Motivation: Cutting the cost of DNA sequencing technology led to a quantum leap in the availability of genomic data. While sharing genomic data across researchers is an essential d…
Near-Optimal Privacy-Utility Tradeoff in Genomic Studies Using Selective SNP Hiding
Nour Almadhoun Alserr, Gulce Kale, Onur Mutlu +2
Motivation: Researchers need a rich trove of genomic datasets that they can leverage to gain a better understanding of the genetic basis of the human genome and identify associatio…
COVIDHunter: An Accurate, Flexible, and Environment-Aware Open-Source COVID-19 Outbreak Simulation Model
Mohammed Alser, Jeremie S. Kim, Nour Almadhoun Alserr +2
Background: Early detection and isolation of COVID-19 patients are essential for successful implementation of mitigation strategies and eventually curbing the disease spread. With…